Publications co-authored by Bioinformatics Core Facility

Movassat M, Crabb TL, Busch A, Yao C, Reynolds DJ, Shi Y and Hertel KJ (2016). Coupling between alternative polyadenylation and alternative splicing is limited to terminal introns. RNA Biol, 13, 646-655

Papadopoulou T, Kaymak A, Sayols S and Richly H (2016). Dual role of Med12 in PRC1-dependent gene repression and ncRNA-mediated transcriptional activation. Cell Cycle, 15, 1479-1493

Sayols S, Scherzinger D and Klein H (2016). dupRadar: A bioconductor package for the assessment of PCR artifacts in RNA-Seq data. BMC Bioinf, 17, 428

Busch A and Hertel KJ (2015). Splicing predictions reliably classify different types of alternative splicing. RNA, 21, 813-823

Simon M, Richard EM, Wang X, Shahzad M, Huang VH, Qaiser TA, Potluri P, Mahl SE, Davila A, Nazli S, Hancock S, Yu M, Gargus J, Chang R, Al-Sheqaih N, Newman WG, Abdenur J, Starr A, Hegde R, Dorn T, Busch A, Park E, Wu J, Schwenzer H, Flierl A, Florentz C, Sissler M, Khan SN, Li R, Guan MX, Friedman TB, Wu DK, Procaccio V, Riazuddin S, Wallace DC, Ahmed ZM, Huang T and Riazuddin S (2015). Mutations of human NARS2, encoding the mitochondrial asparaginyl-tRNA synthetase, cause nonsyndromic deafness and Leigh syndrome. PLoS Genet, 11, e1005097

Villanueva A, Portela A, Sayols S, Battiston C, Hoshida Y, Méndez-González J, Imbeaud S, Letouzé E, Hernandez-Gea V, Cornella H, Pinyol R, Solé M, Fuster J, Zucman-Rossi J, Mazzaferro V, Esteller M and Llovet JM (2015). DNA methylation-based prognosis and epidrivers in hepatocellular carcinoma. Hepatology, 61, 1945-1956

Acebron SP, Karaulanov E, Berger BS, Huang YL and Niehrs C (2014). Mitotic Wnt signalling promotes protein stabilization and regulates cell size. Mol Cell, 54, 663-674

de Albuquerque BF, Luteijn MJ, Cordeiro Rodrigues RJ, van Bergeijk P, Waaijers S, Kaaij LJ, Klein H, Boxem M and Ketting RF (2014). PID-1 is a novel factor that operates during 21U-RNA biogenesis in Caenorhabditis elegans. Genes Dev, 28, 683-688

Fröhlich D, Kuo WP, Frühbeis C, Sun JJ, Zehendner CM, Luhmann HJ, Pinto S, Toedling J, Trotter J and Krämer-Albers EM (2014). Multifaceted effects of oligodendroglial exosomes on neurons: impact on neuronal firing rate, signal transduction and gene regulation. Philos Trans R Soc Lond B Biol Sci, 369, 1652

Malone CD, Mestdagh C, Akhtar J, Kreim N, Deinhard P, Sachidanandam R, Treisman J and Roignant JY (2014). The exon junction complex controls transposable element activity by ensuring faithful splicing of the piwi transcript. Genes Dev, 28, 1786-1799

Simonetti M, Agarwal N, Stösser S, Bali KK, Karaulanov E, Kamble R, Pospisilova B, Kurejova M, Birch-meier W, Niehrs C, Heppenstall P and Kuner R (2014). Wnt-Fzd signalling sensitizes peripheral sensory neurons via distinct noncanonical pathways. Neuron, 83, 104-121

Schäfer A, Karaulanov E, Stapf U, Döderlein G and Niehrs C (2013). Ing1 functions in DNA demethylation by directing Gadd45a to H3K4me3. Genes Dev, 27, 261-273

Chen CJ, Servant N, Toedling J, Sarazin A, Marchais A, Duvernois-Berthet E, Cognat V, Colot V, Voinnet O, Heard E, Ciaudo C and Barillot E (2012). ncPRO-seq: a tool for annotation and profiling of ncRNAs in sRNA-seq data. Bioinformatics, 28, 3147-3149

Publications acknowledging Bioinformatics Core Facility

de Albuquerque BF, Placentino M and Ketting RF (2015). Maternal piRNAs are essential for germline development following de novo establishment of endo-siRNAs in Caenorhabditis elegans. Dev Cell, 34, 448-56

Thakurela S, Sahu SK, Garding A and Tiwari VT (2015). Dynamics and function of distal regulatory elements during neurogenesis and neuroplasticity. Genome Res, 25, 1309-24